Schema for refFlat
  Database: felCat8    Primary Table: refFlat    Row Count: 447   Data last updated: 2020-08-21
Format description: A gene prediction with additional geneName field.
On download server: MariaDB table dump directory
fieldexampleSQL type info description
geneName SMIM43varchar(255) values Name of gene as it appears in genome browser.
name NM_001384277varchar(255) values Name of gene
chrom chrB1varchar(255) values Reference sequence chromosome or scaffold
strand +char(1) values + or - for strand
txStart 102993928int(10) unsigned range Transcription start position (or end position for minus strand item)
txEnd 103000600int(10) unsigned range Transcription end position (or start position for minus strand item)
cdsStart 102993928int(10) unsigned range Coding region start (or end position for minus strand item)
cdsEnd 102994120int(10) unsigned range Coding region end (or start position for minus strand item)
exonCount 4int(10) unsigned range Number of exons
exonStarts 102993928,102994910,1029962...longblob   Exon start positions (or end positions for minus strand item)
exonEnds 102994123,102995226,1029963...longblob   Exon end positions (or start positions for minus strand item)

Connected Tables and Joining Fields
        hgFixed.refLink.name (via refFlat.geneName)
      felCat8.mrnaOrientInfo.name (via refFlat.name)
      felCat8.refGene.name (via refFlat.name)
      felCat8.refSeqAli.qName (via refFlat.name)
      hgFixed.gbCdnaInfo.acc (via refFlat.name)
      hgFixed.gbSeq.acc (via refFlat.name)
      hgFixed.imageClone.acc (via refFlat.name)
      hgFixed.refLink.mrnaAcc (via refFlat.name)
      hgFixed.refSeqStatus.mrnaAcc (via refFlat.name)
      hgFixed.refSeqSummary.mrnaAcc (via refFlat.name)
      knownGeneV39.kgXref.refseq (via refFlat.name)
      knownGeneV39.knownToRefSeq.value (via refFlat.name)

Sample Rows
 
geneNamenamechromstrandtxStarttxEndcdsStartcdsEndexonCountexonStartsexonEnds
SMIM43NM_001384277chrB1+1029939281030006001029939281029941204102993928,102994910,102996268,102999073,102994123,102995226,102996339,103000600,
FELCATV1R14NM_001167486chrB2-360102836020003601028360200013601028,3602000,
FELCATV1R13NM_001167485chrE2-615036861513196150368615131916150368,6151319,
FELCATV1R12NM_001167484chrE2_AANG03041955v1_random-997195799719571997,1957,
FELCATV1R12NM_001167484chrUn_AANG03044358v1-167826381678263811678,2638,
FELCATV1R11NM_001167483chrE2+134411913450371344119134503711344119,1345037,
FELCATV1R10NM_001167482chrE2-123131012322251231310123211111231310,1232225,
FELCATV1R9NM_001167481chrE2-606195760629026061957606290216061957,6062902,
FELCATV1R8NM_001167480chrE2+537939253803135379392538031315379392,5380313,
FELCATV1R7NM_001167479chrE2-612244261234056122442612340516122442,6123405,

Note: all start coordinates in our database are 0-based, not 1-based. See explanation here.